Locus 3510

Sequence ID X_DroMel_CAF1
Location 9,421,833 – 9,421,926
Length 93
Max. P 0.643101
window5745

overview

Window 5

Location 9,421,833 – 9,421,926
Length 93
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 78.72
Mean single sequence MFE -22.45
Consensus MFE -9.96
Energy contribution -10.53
Covariance contribution 0.56
Combinations/Pair 1.14
Mean z-score -2.71
Structure conservation index 0.44
SVM decision value 0.23
SVM RNA-class probability 0.643101
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9421833 93 + 22224390
CAAACAACAAUAUGUAUGCCCCAUAUUUACAUUUGCCAAACGGCCAAUAGC--------------CAGAAGCUAAUCGCUGGC---AUUAUUGAUAUAUGGCAGACUUAU
.............((.((((..(((((......((((....(((.....))--------------)...(((.....))))))---).....)))))..)))).)).... ( -21.90)
>DroSec_CAF1 3298 91 + 1
CAAAUAACCAUAUGUAUGCCCCAUGUUUACAUUUUCCA-ACUGCCAAUAGC--------------CAGCAGCUAAUCGCUGGC---AU-AUUGAUAUAUGGCAAACUUAU
.......((((((((.......(((....)))......-.....(((((((--------------((((........))))))---.)-))))))))))))......... ( -22.90)
>DroSim_CAF1 3270 95 + 1
CAACUAACCAAAUGUAUGCCCCAUGUUUACAUUUUCCA-ACUGCCAAUAGCCA----------GCCAGCAGCUAAUCGCUGGC---AU-AUUGAUAUAUGGCAAACUUAU
.........(((((((.((.....)).)))))))....-..((((((((..((----------((((((........))))))---..-..)).))).)))))....... ( -22.00)
>DroYak_CAF1 3342 101 + 1
CAAACA-------GUAUGCCCCAUGUUUACAUUCGCCA-ACUGCCAAUUGCCAAUUGCCAAUUGCCAGGCGUUAAUCGCUGGUAGUAU-AUUGAUAUAUGGCUGACUUAU
....((-------((((((...(((....)))..((((-.(((.((((((.(....).)))))).)))(((.....))))))).))))-))))................. ( -23.00)
>consensus
CAAACAACCAUAUGUAUGCCCCAUGUUUACAUUUGCCA_ACUGCCAAUAGC______________CAGCAGCUAAUCGCUGGC___AU_AUUGAUAUAUGGCAAACUUAU
.............((.((((..(((((.......((((....((...((((...................))))...)))))).........)))))..)))).)).... ( -9.96 = -10.53 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:10 2006